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    Rhamnogalacturonate lyase family protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 837520, updated on 18-Sep-2024

    Summary

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    Official Full Name
    Rhamnogalacturonate lyase family protein
    Primary source
    TAIR:AT1G09880
    Locus tag
    AT1G09880
    See related
    Araport:AT1G09880
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    F21M12.27; F21M12_27
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    Genomic context

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    Location:
    chromosome: 1
    Exon count:
    15
    Sequence:
    Chromosome: 1; NC_003070.9 (3208712..3213468, complement)

    Chromosome 1 - NC_003070.9Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene xylem bark cysteine peptidase 3 Neighboring gene ncRNA Neighboring gene purine permease 16 Neighboring gene histidine acid phosphatase family protein Neighboring gene ncRNA Neighboring gene Rhamnogalacturonate lyase family protein Neighboring gene Pentatricopeptide repeat (PPR-like) superfamily protein

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003070.9

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana. Theologis A, et al. Nature, 2000 Dec 14. PMID 11130712

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    NM_001331862.1
    NM_100862.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables carbohydrate binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables lyase activity ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    enables rhamnogalacturonan endolyase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in carbohydrate metabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in extracellular region ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    Rhamnogalacturonate lyase family protein
    NP_172459.1
    • Rhamnogalacturonate lyase family protein; CONTAINS InterPro DOMAIN/s: Rhamnogalacturonate lyase (InterPro:IPR010325), Carbohydrate-binding-like fold (InterPro:IPR013784), Galactose-binding domain-like (InterPro:IPR008979); BEST Arabidopsis thaliana protein match is: Rhamnogalacturonate lyase family protein (TAIR:AT1G09890.1); Has 288 Blast hits to 274 proteins in 61 species: Archae - 0; Bacteria - 42; Metazoa - 0; Fungi - 85; Plants - 160; Viruses - 0; Other Eukaryotes - 1 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_003070.9 Reference assembly

      Range
      3208712..3213468 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001331860.1 → NP_001322798.1  Rhamnogalacturonate lyase family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178W3M4, A0A1P8AV80, A0A5S9TJM1
      Conserved Domains (3) summary
      cd10316
      Location:386 → 485
      RGL4_M; Middle domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase
      pfam14683
      Location:495 → 685
      CBM-like; Polysaccharide lyase family 4, domain III
      cl15675
      Location:53 → 255
      RGL4_N; N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase

    2. NM_001331861.1 → NP_001322797.1  Rhamnogalacturonate lyase family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A178W3M4, A0A1P8AV46

    3. NM_100862.2 → NP_172459.1  Rhamnogalacturonate lyase family protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_172459.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A654E9W0, O04510
      Conserved Domains (3) summary
      pfam14683
      Location:429 → 619
      CBM-like; Polysaccharide lyase family 4, domain III
      pfam14686
      Location:320 → 419
      fn3_3; Polysaccharide lyase family 4, domain II
      cl15675
      Location:1 → 189
      RGL4_N; N-terminal catalytic domain of rhamnogalacturonan lyase, a family 4 polysaccharide lyase

    4. NM_001331862.1 → NP_001322796.1  Rhamnogalacturonate lyase family protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8AV55, A0A654E9W0
    Nucleotide Protein
    Heading Accession and Version

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